Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Six1

Cell type

Cell type Class
Others
Cell type
Thymic epithelial cells
NA
NA

Attributes by original data submitter

Sample

source_name
Six1_ChIP1
strain
ICR
tissue
total TEC
age
E18.5
genotype
wildtype
chip antibody
anti-Six1 (HPA0011893, Sigma)

Sequenced DNA Library

library_name
GSM6190445
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Thymi were removed and enzymatically dissociated with Liberase TH and DNase. TEC were sorted and Six1 or Sox9 binding sites in the genome were determined by ChIPseq. ChIPseq libraries were prepared for sequencing using a modified ChIPseq protocol (Blecher-Gonen et al., 2013, Bansal et al, 2017)

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
37124577
Reads aligned (%)
94.6
Duplicates removed (%)
17.0
Number of peaks
214 (qval < 1E-05)

mm9

Number of total reads
37124577
Reads aligned (%)
94.4
Duplicates removed (%)
18.6
Number of peaks
244 (qval < 1E-05)

Base call quality data from DBCLS SRA